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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTGAGGAAAACATGCAGAAACTTCTTCCACGGCATCAGCTTGCAATTGCATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGGgtacttattttttctctcttgtttaaagcattgtcctttctattgaattctcacaacatcattttatcctgcag

Basic information

species Zea mays
transcript GRMZM2G177947_T01
intron # 6
splice site 5'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|91052861|gb|EB163279.1|EB163279
EST:     ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGG                         CAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
genomic: ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGGgtacttattt ... tatcctgcagCAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
EST: gi|148954762|gb|EC900223.2|EC900223
EST:     ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGG                         CAAACAACCTTGCTGTGGATGCCATATTTGTTTACACAAAGCATGGTCACA
genomic: ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGGgtacttattt ... tatcctgcagCAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
EST: gi|148957049|gb|EC903011.2|EC903011
EST:     ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGG                         CAAACAACCTTGCTGTGGATGCCATATTTGTTTACACAAAGCATGGTCACA
genomic: ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGGgtacttattt ... tatcctgcagCAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
EST: gi|211541738|gb|FL481476.1|FL481476
EST:     ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGG                         CAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
genomic: ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGGgtacttattt ... tatcctgcagCAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
EST: gi|148934161|gb|EC878180.2|EC878180
EST:     ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGG                         CAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
genomic: ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGGgtacttattt ... tatcctgcagCAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
EST: gi|211170997|gb|FL031980.1|FL031980
EST:     ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGG                         CAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
genomic: ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGGgtacttattt ... tatcctgcagCAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
EST: gi|148938915|gb|EC883274.2|EC883274
EST:     ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGG                         CAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
genomic: ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGGgtacttattt ... tatcctgcagCAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
EST: gi|6031551|gb|AW076453.1|AW076453
EST:     ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGG                         CAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
genomic: ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGGgtacttattt ... tatcctgcagCAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
EST: gi|149076450|gb|EE165073.2|EE165073
EST:     ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGG                         CAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
genomic: ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGGgtacttattt ... tatcctgcagCAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
EST: gi|149106830|gb|EE188727.2|EE188727
EST:     ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGG                         CAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
genomic: ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGGgtacttattt ... tatcctgcagCAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
EST: gi|32939704|gb|CF044523.1|CF044523
EST:     ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGG                         CAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
genomic: ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGGgtacttattt ... tatcctgcagCAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
EST: gi|31364115|gb|CD448470.1|CD448470
EST:     ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGG                         CAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
genomic: ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGGgtacttattt ... tatcctgcagCAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
EST: gi|149077010|gb|EE165665.2|EE165665
EST:     ATTGCCTGACGGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGG                         CAAACAACCTTGCTGTGGATGCCATATTTGTTTACACAAAGCATGGTCACA
genomic: ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGGgtacttattt ... tatcctgcagCAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
EST: gi|71764978|gb|DR962915.1|DR962915
EST:     ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGG                         CAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
genomic: ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGGgtacttattt ... tatcctgcagCAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
EST: gi|71764391|gb|DR962328.1|DR962328
EST:     -TGCCCTGACCGGATTTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGG                         CAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
genomic: TTG-CCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGGgtacttattt ... tatcctgcagCAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
EST: gi|18167665|gb|BM337505.1|BM337505
EST:     ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGG                         CAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCACGGTCACA
genomic: ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGGgtacttattt ... tatcctgcagCAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
EST: gi|18166660|gb|BM336499.1|BM336499
EST:     ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGG                         CAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCACGGTCACA
genomic: ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGGgtacttattt ... tatcctgcagCAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
EST: gi|32867159|gb|CF006841.1|CF006841
EST:     ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGG                         CAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
genomic: ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGGgtacttattt ... tatcctgcagCAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
EST: gi|50329234|gb|CO524360.1|CO524360
EST:     ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGG                         CAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
genomic: ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGGgtacttattt ... tatcctgcagCAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
EST: gi|149095508|gb|EE181164.2|EE181164
EST:     ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGG                         CAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
genomic: ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGGgtacttattt ... tatcctgcagCAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
EST: gi|67015313|gb|CO444062.1|CO444062
EST:     ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGG                         CAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
genomic: ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGGgtacttattt ... tatcctgcagCAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
EST: gi|37385444|gb|CF629864.1|CF629864
EST:     ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGG                         CAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA
genomic: ATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGGgtacttattt ... tatcctgcagCAAACAACCTTGCTGTGGATGCCATATTTGTCTACACAAAGCATGGTCACA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGTGAGGAAAACATGCAGAAACTTCTTCCACGGCATCAGCTTGCAATTGCATTGCCTGACCGGATCTCAGAGCAGATTTGCAGCTGTGCTGTAGAAATGGgtacttattttttctctcttgtttaaagcattgtcctttctattgaattctcacaacatcattttatcctgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG